This is also posted on SO[1], with the code. Using XML and XSL, in less than a second the CLI program produces the desired PDF. My embedded program in Clojure, which follows the example code (ExampleXML2PDF.java) closely, uses the same XML and XSL to produce the same PDF -- but it takes it around a full minute. I've tried sifting through the example code to find places optimizations occur, but I'm hoping someone here can help me know how to get around the tremendous time sink that seems to occur with my transformer.transform call.
Thanks,
- Tory

Footnotes: [1] http://stackoverflow.com/questions/36802128/embedding-fop-xml-to-pdf-why-so-slow-vs-cli

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